genome.fa.s2.2.7.7.80.10.50.1000.12.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Scaffold2
Parameters: 2 7 7 80 10 50 1000
Length:  5794061

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   

This is table  12  of  38  ( 4457 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1901839--1901895	20	2.8	20	97	0	105	45	17	14	22	1.84
1903244--1903309	27	2.5	24	76	13	60	31	3	3	62	1.26
1903243--1903313	25	2.7	28	77	14	71	30	2	2	63	1.23
1903364--1903414	27	1.9	26	88	4	75	47	0	0	52	1.00
1905402--1905444	17	2.5	17	88	0	59	25	4	0	69	1.07
1905402--1905448	22	2.1	22	92	0	76	27	4	0	68	1.08
1905858--1905884	2	13.5	2	100	0	54	0	51	0	48	1.00
1906169--1906330	46	3.5	46	70	14	129	38	0	0	60	1.06
1906217--1906332	50	2.3	50	84	7	148	39	0	0	59	1.03
1906217--1906331	27	4.7	24	74	15	101	39	0	0	60	1.03
1906266--1906328	11	5.1	12	71	21	58	31	1	0	66	1.01
1906465--1906567	34	3.2	32	74	16	90	34	0	0	64	1.01
1906465--1906541	36	2.2	35	84	9	95	35	1	0	63	1.03
1907551--1907611	28	2.2	29	80	13	74	67	0	0	32	0.91
1907756--1907837	19	4.3	19	72	17	64	51	1	1	46	1.16
1907827--1907862	15	2.4	15	95	0	63	52	2	0	44	1.15
1910037--1910095	27	2.2	26	80	11	66	45	0	3	50	1.18
1910075--1910113	20	2.0	20	85	10	53	56	0	0	43	0.99
1913007--1913040	2	17.0	2	100	0	68	0	50	0	50	1.00
1915739--1915779	15	2.7	15	88	0	55	41	2	0	56	1.13
1915752--1915780	15	1.9	15	100	0	58	41	3	0	55	1.17
1921570--1922159	156	3.8	155	78	5	555	39	20	16	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1922987--1923432	165	2.7	163	90	3	693	43	11	10	34	1.75
1924234--1924283	25	2.0	25	84	7	66	2	26	0	72	0.96
1924243--1924283	11	3.4	12	83	16	50	0	26	0	73	0.84
1925123--1925157	12	2.7	13	86	13	54	0	14	0	85	0.59
1925577--1925615	12	3.3	12	85	3	53	79	0	2	17	0.84
1929645--1929672	13	2.2	13	100	0	56	39	17	14	28	1.89
1929717--1929800	13	5.5	13	71	28	60	36	16	13	33	1.87
1929725--1929820	19	5.7	18	73	26	95	37	16	12	33	1.86
1929717--1929819	32	3.2	32	98	0	197	36	17	12	33	1.88
1929788--1929847	19	3.0	20	81	9	70	31	13	13	41	1.83
1933082--1933281	52	3.9	52	97	2	343	31	17	17	34	1.93
1933268--1933294	13	2.1	13	100	0	54	40	14	14	29	1.86
1933359--1933383	13	1.9	13	100	0	50	32	16	16	36	1.90
1933337--1933403	33	2.0	33	88	0	98	40	13	11	34	1.81
1934345--1934413	22	3.2	22	63	19	54	30	17	26	26	1.97
1934279--1935461	49	23.9	49	78	9	1181	31	17	27	24	1.97
1934951--1934978	14	2.0	14	100	0	56	35	7	42	14	1.73
1934274--1935461	309	4.0	295	90	4	1793	30	17	27	24	1.97
1936806--1936899	13	5.7	17	73	26	87	36	17	12	34	1.87
1936798--1936901	32	3.3	32	97	1	192	35	17	12	34	1.87
1943787--1943814	13	2.2	13	100	0	56	39	17	14	28	1.89
1943859--1943942	13	5.5	13	71	28	60	36	16	13	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1943867--1943962	19	5.7	18	73	26	95	37	16	12	33	1.86
1943859--1943961	32	3.2	32	98	0	197	36	17	12	33	1.88
1943930--1943989	19	3.0	20	81	9	70	31	13	13	41	1.83
1944879--1944945	37	1.9	35	88	11	102	29	25	11	32	1.92
1945396--1945454	19	3.0	18	78	14	55	25	11	20	42	1.86
1945488--1945540	20	2.7	20	100	0	106	33	20	15	30	1.93
1945922--1946946	49	21.2	49	81	8	1120	32	18	25	23	1.97
1945922--1946946	150	7.1	150	84	7	1153	32	18	25	23	1.97
1946295--1946946	92	7.0	92	88	5	812	31	18	25	24	1.97
1946808--1946875	21	3.2	20	66	25	50	29	16	27	26	1.97
1947104--1947383	93	3.0	96	82	7	328	29	13	32	23	1.94
1947011--1947417	31	13.0	31	81	10	293	31	14	31	22	1.94
1948353--1948392	19	2.1	19	90	0	62	0	15	0	85	0.61
1948353--1948411	10	5.8	10	81	15	59	0	13	1	84	0.69
1948657--1948700	13	3.3	13	81	6	52	4	0	11	84	0.77
1955706--1955733	13	2.2	13	100	0	56	39	17	14	28	1.89
1955805--1955844	21	2.0	20	85	9	55	32	10	12	45	1.75
1956871--1956914	22	2.1	21	91	8	72	50	6	4	38	1.50
1957142--1957187	20	2.3	20	88	0	65	41	10	17	30	1.84
1957620--1957711	36	2.7	33	77	12	98	31	14	25	29	1.94
1957620--1957705	32	2.6	34	80	10	97	30	15	25	29	1.96
1959260--1959300	21	2.0	21	85	0	55	63	0	14	21	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1959273--1959315	21	2.0	21	86	0	59	62	0	20	16	1.32
1960602--1961057	229	2.0	229	99	0	894	27	8	19	43	1.80
1961729--1961779	25	2.0	25	96	0	93	15	17	11	54	1.70
1962859--1962883	13	1.9	13	100	0	50	32	16	16	36	1.90
1962838--1962901	32	2.0	33	87	3	94	31	15	14	39	1.87
1962961--1963015	20	2.8	20	83	5	67	38	9	16	36	1.80
1963445--1963515	36	2.0	35	91	2	115	32	11	28	28	1.91
1963445--1963541	36	2.9	34	82	13	112	30	11	25	31	1.91
1964477--1964528	26	2.0	27	81	7	63	40	0	1	57	1.10
1976191--1976584	75	5.3	75	92	0	635	38	21	9	30	1.84
1976326--1976525	39	5.3	39	67	11	146	39	23	8	28	1.84
1976365--1976564	36	5.4	36	66	11	125	39	22	7	32	1.80
1976885--1976939	27	2.0	27	89	0	83	30	1	38	29	1.68
1981022--1981086	33	2.0	33	87	0	94	40	13	12	33	1.82
1981042--1981066	13	1.9	13	100	0	50	32	16	16	36	1.90
1982650--1982697	19	2.6	19	90	3	80	37	12	16	33	1.86
1982782--1982910	52	2.5	52	93	0	222	34	17	18	28	1.94
1993557--1993592	17	2.1	17	100	0	72	41	22	5	30	1.76
1995702--1995746	18	2.5	18	77	0	54	44	0	15	40	1.47
1996899--1996990	43	2.1	43	82	6	114	32	4	15	47	1.65
1999142--1999180	19	2.2	18	90	9	62	33	12	12	41	1.82
2000147--2000195	21	2.4	21	86	10	66	20	14	18	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2005351--2005743	201	2.0	201	90	3	630	37	10	22	29	1.87
2010467--2010495	14	2.1	14	93	6	51	62	6	0	31	1.22
2011614--2011650	13	2.7	14	84	15	51	40	0	0	59	0.97
2011617--2011646	15	2.1	15	93	6	53	43	0	0	56	0.99
2018975--2019090	51	2.3	51	89	3	171	43	9	17	29	1.80
2023294--2023354	19	3.6	18	75	25	69	37	18	11	32	1.86
2023284--2023355	32	2.2	32	95	0	126	37	18	11	33	1.86
2033751--2033775	13	1.9	13	100	0	50	32	16	16	36	1.90
2038700--2038913	97	2.2	97	83	2	261	36	10	24	28	1.89
2040245--2040283	21	1.9	21	89	5	62	43	12	23	20	1.86
2040911--2040939	15	1.9	15	100	0	58	27	13	17	41	1.87
2046819--2047075	79	3.3	79	81	4	286	33	11	25	29	1.91
2047013--2047128	51	2.3	51	86	0	160	31	10	25	32	1.89
2047223--2047291	28	2.5	28	88	11	106	27	15	31	24	1.96
2047096--2047346	110	2.3	109	85	2	335	33	13	25	26	1.94
2047303--2047425	51	2.4	51	81	0	174	37	10	21	30	1.87
2049749--2049842	20	4.7	20	89	5	129	41	12	17	28	1.86
2049749--2049925	40	4.4	39	72	18	139	42	15	15	26	1.86
2049869--2049925	20	2.8	20	94	0	105	47	15	12	24	1.80
2049858--2049887	13	2.3	13	94	0	51	43	13	13	30	1.82
2051595--2051644	21	2.4	22	83	9	61	32	20	0	48	1.50
2052856--2052912	19	2.9	19	89	2	87	31	15	17	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2052957--2052987	13	2.4	13	94	0	53	35	16	12	35	1.87
2059078--2059386	154	2.0	154	98	0	591	34	27	9	28	1.88
2070770--2071604	59	14.3	59	87	5	987	25	27	20	25	1.99
2071417--2071557	28	5.1	27	61	19	67	27	29	19	22	1.98
2072336--2072390	20	2.8	20	77	0	65	25	14	14	45	1.83
2074724--2074853	54	2.5	53	81	9	160	32	25	10	32	1.89
2074871--2075039	52	3.2	53	73	7	148	30	24	10	34	1.89
2075022--2075098	28	2.8	28	88	4	102	23	32	19	24	1.97
2074727--2075070	185	1.9	184	87	3	503	29	25	11	32	1.91
2075052--2075255	78	2.6	79	82	3	225	25	29	16	28	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38